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[H-index = 13, also see on Google Scholar and publicationslist.org ]
Books:
Editorials and other not peer-reviewed articles:
Anisimova, M., D. A. Liberles, H.
Philippe, J. Provan, T. Pupko, and A. von Haeseler 2013. State-of the art methodologies dictate new standards for phylogenetic analysis. BMC Evol. Biol. xx:xx-xx link Anisimova, M. 2012. Preface to “Evolutionary genomics: statistical and
computational methods” (2 vols), ed. Anisimova, in Meth Mol Biol, Springer link
Research articles and book chapters (all peer-reviewed):
Anisimova, M., J. P. Bielawski, and Z. Yang 2001. Accuracy and power of the likelihood ratio test to detect adaptive molecular evolution. Mol. Biol. Evol. 18:1585-1592 link Anisimova, M., J. P. Bielawski, and Z. Yang 2002. Accuracy and power of Bayes prediction of amino acid sites under positive selection. Mol. Biol. Evol. 19:950-958 link Anisimova, M., R. Nielsen, and Z. Yang 2003. Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites. Genetics 164: 1229-1236 link Anisimova, M. and Z. Yang 2004. Molecular evolution of HDV antigen gene: recombination or positive selection? J. Mol. Evol. 59: 815-826 link Balakirev, E.S., M. Anisimova, and F.J. Ayala 2006. Positive and negative selection in the beta-esterase gene cluster of the Drosophila melanogaster subgroup. J. Mol. Evol. 62: 496-510 link Anisimova, M. and O. Gascuel. 2006. Approximate likelihood ratio test for branches: a fast, accurate and powerful alternative. Syst. Biol. 55(4):539-552 link Anisimova, M. and Z. Yang 2007. Multiple hypotheses testing to detect adaptive protein evolution affecting individual branches and sites. Mol. Biol. Evol. 24:1219-1228 link Anisimova, M., J.P. Bielawski, K. Dunn and Z. Yang 2007. Phylogenomic analysis of natural selection pressure in Streptococcus. BMC Evol. Biol. 7:154-167 link Anisimova, M. and D. A. Liberles. 2007 The quest for natural selection in the age of comparative genomics. Heredity 99:567-579 link Kajava, A.V., M. Anisimova, and N. Peeters 2008. Origin and evolution of GALA-LRR, a new member of the CC-LRR subfamily: from plants to bacteria? PLoS One 3(2): e1694. link Anisimova, M. and C. Kosiol 2009. Investigating protein-coding sequence evolution with probabilistic codon substitution models. Mol. Biol. Evol. 26(2):255-271 link Dimitrieva, S. and M. Anisimova 2010. PANDITplus: toward better integration of evolutionary view on molecular sequences with supplementary bioinformatics resources. Trends Evol. Biol. 2(1): e1 link Guindon, S., JF. Dufayard, V. Lefort, M. Anisimova, W. Hordijk and O. Gascuel 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0 Syst. Biol. 59(3):307-321 link Anisimova*, M., G.M. Cannarozzi* , and D.A. Liberles* 2010. Finding the balance between the mathematical and biological optima in multiple sequence alignment. Trends Evol. Biol. 2(1): e7 link Anisimova, M., M. Gil, JF. Dufayard, C. Dessimoz and O. Gascuel 2011. Survey of branch support methods demonstrates accuracy, power, and robustness of fast likelihood-based approximation schemes. Syst Biol 60:685–699; doi: 10.1093/sysbio/syr041 link Schirrmeister B. E., M. Anisimova, A. Antonelli, H. C. Bagheri 2011. Evolution of cyanobacterial morphotypes: taxa required for improved phylogenomic approaches. Communicative & Integrative Biology link Szalkowski A., and M. Anisimova 2011. Markov models of amino acid substitution to study proteins with intrinsically disordered regions. PLoS One 6(5): e20488. doi:10.1371/journal.pone.0020488 link Balakirev E.S., M. Anisimova, and F.J. Ayala 2011. Complex interplay of evolutionary forces in the ladybird homeobox genes of Drosophila melanogaster.PLoS One 6(7): e22613. doi:10.1371/journal.pone.0022613 link Remigi P., M. Anisimova, A. Guidot, S. Genin and N. Peeters. 2011. Functional diversification of the GALA type-three effector family contributes to Ralstonia solanacearum adaptation on several plant hosts. New Phytologist DOI: 10.1111/j.1469-8137.2011.03854.x link Dalquen D. A, M. Anisimova, G. Gonnet, and C. Dessimoz 2011. ALF - A simulation framework for genome evolution. Mol Biol Evol doi: 10.1093/molbev/msr268 link Wang M, M. Kapralov, and M. Anisimova 2011. Co-evolution of amino acid residues in the key photosynthetic enzyme RuBisCo in land plants. BMC Evol Biol 11:266 link Kosiol C. and M. Anisimova 2012. Methods for detecting natural selection in protein-coding genes in "Evolutionary Genomics: statistical and computational methods" vol. 2 , ed. Anisimova M. within Meth. Mol. Biol. Series of Humana-Springer link Anisimova, M. 2012. Parametric models of codon evolution in Codon Evolution: mechanisms and models, eds. Cannarozzi G, Schneider A., Oxford University Press link
Anisimova, M. and D. Liberles 2012. Detecting and understanding natural selection, in Codon Evolution: mechanisms and models, eds. Cannarozzi G, Schneider A., Oxford University Press link Roth, A., M. Anisimova, and G.M. Cannarozzi 2012. Measuring codon usage bias, in Codon Evolution: mechanisms and models, eds. Cannarozzi G, Schneider A., Oxford University Press link Schirrmeister, B.E., D.A. Dalquen, M. Anisimova and H.C. Bagheri 2012. Gene copy number variation and its significance in cyanobacterial phylogeny. BMC Microbiology 2:177, doi:10.1186/1471-2180-12-177 link Schaper, E., A.V. Kajava, A. Hauser, and M. Anisimova 2012. Repeat or not repeat?—Statistical validation of tandem repeat prediction in genomic sequences Nucl. Acids Res. 40 (20): 10005-10017. link Gil*, M., M.S. Zanetti*, S. Zoller, and M Anisimova 2013. CodonPhyML: Fast maximum likelihood phylogeny estimation under codon substitution models.
Mol Biol Evol open acsess Szalkowski, A., and M. Anisimova 2013. Graph-based modeling of tandem repeats improves global multiple sequence alignment. Nucl Acids Res (pending revision) link Dimitrieva, S. and M. Anisimova 2013. Unraveling patterns of site-to-site synonymous rates variation and associated gene properties of protein domains and families. (submitted) link
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